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2AG5
Asym. Unit
Info
Asym.Unit (178 KB)
Biol.Unit 1 (171 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF HUMAN DHRS6
Authors
:
G. Kunde, P. Lukacik, E. Papagrigoriou, M. Sundstrom, C. Arrowsmith, J A. Edwards, F. Von Delft, U. Oppermann, Structural Genomics Conso (Sgc)
Date
:
26 Jul 05 (Deposition) - 09 Aug 05 (Release) - 14 Mar 12 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.84
Chains
:
Asym. Unit : A,B,C,D
Biol. Unit 1: A,B,C,D (1x)
Keywords
:
Protein-Co-Factor Complex, Structural Genomics, Structural Genomics Consortium, Sgc, Oxidoreductase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
K. Guo, P. Lukacik, E. Papagrigoriou, M. Meier, W. H. Lee, J. Adamski, U. Oppermann
Characterization Of Human Dhrs6, An Orphan Short Chain Dehydrogenase/Reductase Enzyme: A Novel, Cytosolic Type 2 R-Beta-Hydroxybutyrate Dehydrogenase
J. Biol. Chem. V. 281 10291 2006
[
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Hetero Components
(2, 8)
Info
All Hetero Components
1a: NICOTINAMIDE-ADENINE-DINUCLEOTIDE (NADa)
1b: NICOTINAMIDE-ADENINE-DINUCLEOTIDE (NADb)
1c: NICOTINAMIDE-ADENINE-DINUCLEOTIDE (NADc)
1d: NICOTINAMIDE-ADENINE-DINUCLEOTIDE (NADd)
2a: SULFATE ION (SO4a)
2b: SULFATE ION (SO4b)
2c: SULFATE ION (SO4c)
2d: SULFATE ION (SO4d)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
NAD
4
Ligand/Ion
NICOTINAMIDE-ADENINE-DINUCLEOTIDE
2
SO4
4
Ligand/Ion
SULFATE ION
[
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Sites
(8, 8)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
3: AC3 (SOFTWARE)
4: AC4 (SOFTWARE)
5: AC5 (SOFTWARE)
6: AC6 (SOFTWARE)
7: AC7 (SOFTWARE)
8: AC8 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
ARG A:144 , LEU A:185 , ARG A:188 , PHE A:202 , ARG A:205 , NAD A:2001
BINDING SITE FOR RESIDUE SO4 A 5001
2
AC2
SOFTWARE
ARG C:144 , LEU C:185 , ARG C:188 , PHE C:202 , ARG C:205 , NAD C:3001
BINDING SITE FOR RESIDUE SO4 C 5002
3
AC3
SOFTWARE
ARG B:144 , LEU B:185 , ARG B:188 , PHE B:202 , NAD B:1001 , HOH B:5125
BINDING SITE FOR RESIDUE SO4 B 5003
4
AC4
SOFTWARE
ARG D:144 , LEU D:185 , ARG D:188 , PHE D:202 , ARG D:205 , NAD D:4001 , HOH D:5166
BINDING SITE FOR RESIDUE SO4 D 5004
5
AC5
SOFTWARE
ALA B:13 , ALA B:15 , GLN B:16 , GLY B:17 , ILE B:18 , ASP B:37 , ILE B:38 , LEU B:57 , ASP B:58 , VAL B:59 , VAL B:81 , GLY B:83 , LEU B:104 , SER B:132 , TYR B:147 , LYS B:151 , PRO B:177 , GLY B:178 , VAL B:180 , THR B:182 , PRO B:183 , SER B:184 , SO4 B:5003 , HOH B:5024 , HOH B:5123 , HOH B:5128 , HOH B:5133 , HOH B:5144 , HOH B:5174 , HOH B:5187 , HOH B:5191
BINDING SITE FOR RESIDUE NAD B 1001
6
AC6
SOFTWARE
ALA A:13 , GLN A:16 , GLY A:17 , ILE A:18 , ASP A:37 , ILE A:38 , LEU A:57 , ASP A:58 , VAL A:59 , VAL A:81 , GLY A:83 , LEU A:104 , SER A:132 , TYR A:147 , LYS A:151 , PRO A:177 , GLY A:178 , VAL A:180 , THR A:182 , PRO A:183 , SER A:184 , SO4 A:5001 , HOH A:5012 , HOH A:5030 , HOH A:5088 , HOH A:5094 , HOH A:5100 , HOH A:5117 , HOH A:5120 , HOH A:5144
BINDING SITE FOR RESIDUE NAD A 2001
7
AC7
SOFTWARE
ALA C:13 , ALA C:15 , GLN C:16 , GLY C:17 , ILE C:18 , ASP C:37 , ILE C:38 , LEU C:57 , ASP C:58 , VAL C:59 , VAL C:81 , GLY C:83 , LEU C:104 , SER C:132 , TYR C:147 , LYS C:151 , PRO C:177 , GLY C:178 , THR C:179 , VAL C:180 , THR C:182 , PRO C:183 , SER C:184 , ARG C:188 , SO4 C:5002 , HOH C:5023 , HOH C:5033 , HOH C:5103 , HOH C:5122 , HOH C:5126 , HOH C:5139 , HOH C:5145 , HOH C:5174
BINDING SITE FOR RESIDUE NAD C 3001
8
AC8
SOFTWARE
ALA D:13 , ALA D:15 , GLN D:16 , GLY D:17 , ILE D:18 , ASP D:37 , ILE D:38 , LEU D:57 , ASP D:58 , VAL D:59 , VAL D:81 , ALA D:82 , GLY D:83 , LEU D:104 , SER D:132 , TYR D:147 , LYS D:151 , PRO D:177 , GLY D:178 , THR D:179 , VAL D:180 , THR D:182 , PRO D:183 , SER D:184 , ARG D:188 , SO4 D:5004 , HOH D:5028 , HOH D:5035 , HOH D:5066 , HOH D:5082 , HOH D:5124 , HOH D:5128 , HOH D:5139 , HOH D:5169 , HOH D:5192
BINDING SITE FOR RESIDUE NAD D 4001
[
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]
SAPs(SNPs)/Variants
(1, 4)
Info
(mutated residues are not available)
All SNPs/Variants
1: VAR_023602 (N70S, chain A/B/C/D, )
View:
Select:
Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
1
UniProt
VAR_023602
N
70
S
BDH2_HUMAN
Polymorphism
1054707
A/B/C/D
N
70
S
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
[
close SNP/Variant info
]
PROSITE Patterns/Profiles
(1, 4)
Info
All PROSITE Patterns/Profiles
1: ADH_SHORT (A:134-162,B:134-162,C:134-162,D:13...)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
ADH_SHORT
PS00061
Short-chain dehydrogenases/reductases family signature.
BDH2_HUMAN
134-162
4
A:134-162
B:134-162
C:134-162
D:134-162
[
close PROSITE info
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Exons
(9, 36)
Info
All Exons
Exon 1.4 (A:1-24 | B:2-24 | C:2-24 | D:2-24)
Exon 1.5 (A:25-51 | B:25-51 | C:25-51 | D:25...)
Exon 1.6b (A:51-83 | B:51-83 | C:51-83 | D:51...)
Exon 1.8b (A:83-119 | B:83-119 | C:83-119 | D...)
Exon 1.9c (A:120-140 | B:120-140 | C:120-140 ...)
Exon 1.9h (A:140-178 | B:140-178 | C:140-178 ...)
Exon 1.10 (A:178-197 | B:178-197 | C:178-197 ...)
Exon 1.11 (A:198-228 | B:198-228 | C:198-228 ...)
Exon 1.12d (A:229-245 | B:229-245 | C:229-245 ...)
View:
Select:
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All Exon Boundaries
01: Boundary 1.1a/1.4
02: Boundary 1.4/1.5
03: Boundary 1.5/1.6b
04: Boundary 1.6b/1.8b
05: Boundary 1.8b/1.9c
06: Boundary 1.9c/1.9h
07: Boundary 1.9h/1.10
08: Boundary 1.10/1.11
09: Boundary 1.11/1.12d
10: Boundary 1.12d/-
View:
Label:
Note:
Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
ENSEMBL
UniProtKB
PDB
No.
Transcript ID
Exon
Exon ID
Genome Location
Length
ID
Location
Length
Count
Location
Length
1.1a
ENST00000296424
1a
ENSE00002045522
chr4:
104021040-104020940
101
BDH2_HUMAN
-
0
0
-
-
1.4
ENST00000296424
4
ENSE00002199191
chr4:
104017431-104017340
92
BDH2_HUMAN
1-24
24
4
A:1-24
B:2-24
C:2-24
D:2-24
24
23
23
23
1.5
ENST00000296424
5
ENSE00001080726
chr4:
104016438-104016360
79
BDH2_HUMAN
25-51
27
4
A:25-51
B:25-51
C:25-51
D:25-51
27
27
27
27
1.6b
ENST00000296424
6b
ENSE00001080727
chr4:
104013853-104013757
97
BDH2_HUMAN
51-83
33
4
A:51-83
B:51-83
C:51-83
D:51-83
33
33
33
33
1.8b
ENST00000296424
8b
ENSE00001080719
chr4:
104012442-104012334
109
BDH2_HUMAN
83-119
37
4
A:83-119
B:83-119
C:83-119
D:83-119
37
37
37
37
1.9c
ENST00000296424
9c
ENSE00001080724
chr4:
104007697-104007637
61
BDH2_HUMAN
120-140
21
4
A:120-140
B:120-140
C:120-140
D:120-140
21
21
21
21
1.9h
ENST00000296424
9h
ENSE00002201366
chr4:
104006619-104006506
114
BDH2_HUMAN
140-178
39
4
A:140-178
B:140-178
C:140-178
D:140-178
39
39
39
39
1.10
ENST00000296424
10
ENSE00002141945
chr4:
104004086-104004028
59
BDH2_HUMAN
178-197
20
4
A:178-197
B:178-197
C:178-197
D:178-197
20
20
20
20
1.11
ENST00000296424
11
ENSE00002141346
chr4:
104003330-104003238
93
BDH2_HUMAN
198-228
31
4
A:198-228
B:198-228
C:198-228
D:198-228
31
31
31
31
1.12d
ENST00000296424
12d
ENSE00001080720
chr4:
104000912-104000592
321
BDH2_HUMAN
229-245
17
4
A:229-245
B:229-245
C:229-245
D:229-245
17
17
17
17
[
close EXON info
]
SCOP Domains
(2, 4)
Info
All SCOP Domains
1a: SCOP_d2ag5b_ (B:)
1b: SCOP_d2ag5c_ (C:)
1c: SCOP_d2ag5d_ (D:)
2a: SCOP_d2ag5a1 (A:1-245)
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)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
NAD(P)-binding Rossmann-fold domains
(1604)
Superfamily
:
NAD(P)-binding Rossmann-fold domains
(1604)
Family
:
automated matches
(447)
Protein domain
:
automated matches
(447)
Human (Homo sapiens) [TaxId: 9606]
(32)
1a
d2ag5b_
B:
1b
d2ag5c_
C:
1c
d2ag5d_
D:
Family
:
Tyrosine-dependent oxidoreductases
(503)
Protein domain
:
Dehydrogenase/reductase SDR family member 6, DHRS6
(1)
Human (Homo sapiens) [TaxId: 9606]
(1)
2a
d2ag5a1
A:1-245
[
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CATH Domains
(1, 4)
Info
all CATH domains
1a: CATH_2ag5C00 (C:2-245)
1b: CATH_2ag5D00 (D:2-245)
1c: CATH_2ag5B00 (B:2-246)
1d: CATH_2ag5A00 (A:1-246)
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Topologies
(
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(
)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
3-Layer(aba) Sandwich
(12045)
Topology
:
Rossmann fold
(7312)
Homologous Superfamily
:
NAD(P)-binding Rossmann-like Domain
(1244)
Human (Homo sapiens)
(188)
1a
2ag5C00
C:2-245
1b
2ag5D00
D:2-245
1c
2ag5B00
B:2-246
1d
2ag5A00
A:1-246
[
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]
Pfam Domains
(0, 0)
Info
all PFAM domains
View:
Select:
Label:
Sorry, no Info available
[
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